Structure of PDB 6n2a Chain B Binding Site BS01

Receptor Information
>6n2a Chain B (length=411) Species: 3702 (Arabidopsis thaliana) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FDHCFKKSSDGFLYCEGTKVEDIMESVERRPFYLYSKPQITRNLEAYKEA
LEGVSSVIGYAIKANNNLKILEHLRSLGCGAVLVSGNELRLALRAGFDPT
KCIFNGNGKSLEDLVLAAQEGVFVNVDSEFDLNNIVEASRISGKQVNVLL
RINPDGNKNSKFGIRNEKLQWFLDQVKAHPKELKLVGAHCHLGSTITKVD
IFRDAAVLMIEYIDEIRRQGFEVSYLNIGGGLGIDYYHAGAVLPTPMDLI
NTVRELVLSRDLNLIIEPGRSLIANTCCFVNHVTGVKTNGTKNFIVIDGS
MAELIRPSLYDAYQHIELVSPPPAEAEVTKFDVVGPVCESADFLGKDREL
PTPPQGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVEEDGSITKIRHAET
FDDHLRFFEGL
Ligand information
Ligand IDLYS
InChIInChI=1S/C6H14N2O2/c7-4-2-1-3-5(8)6(9)10/h5H,1-4,7-8H2,(H,9,10)/p+1/t5-/m0/s1
InChIKeyKDXKERNSBIXSRK-YFKPBYRVSA-O
SMILES
SoftwareSMILES
CACTVS 3.341N[CH](CCCC[NH3+])C(O)=O
ACDLabs 10.04O=C(O)C(N)CCCC[NH3+]
OpenEye OEToolkits 1.5.0C(CC[NH3+])C[C@@H](C(=O)O)N
CACTVS 3.341N[C@@H](CCCC[NH3+])C(O)=O
OpenEye OEToolkits 1.5.0C(CC[NH3+])CC(C(=O)O)N
FormulaC6 H15 N2 O2
NameLYSINE
ChEMBL
DrugBank
ZINC
PDB chain6n2a Chain A Residue 502 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6n2a Active site gating provides stereochemical control for meso-diaminopimelate decarboxylase
Resolution1.88 Å
Binding residue
(original residue number in PDB)		C363 E364
Binding residue
(residue number reindexed from 1)		C338 E339
Annotation score5
Enzymatic activity
Enzyme Commision number 4.1.1.20: diaminopimelate decarboxylase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0008836 diaminopimelate decarboxylase activity
Biological Process
GO:0009089 lysine biosynthetic process via diaminopimelate

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6n2a, PDBe:6n2a, PDBj:6n2a
PDBsum6n2a
PubMed
UniProtQ949X7|DCDA1_ARATH Diaminopimelate decarboxylase 1, chloroplastic (Gene Name=LYSA1)

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